Disease Clusters?

Groups of diseases that share a large number of curated genes with each other, computed via label propagation over the shared-gene similarity graph. See also Shared-Gene Disease Pairs for pairwise comparisons.

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Cluster 599

5 diseases · 10 shared-gene connections
5 Diseases
1 Unique genes
0.500 Avg. similarity score
Cataract-neurodevelopmental syndrome Most-connected disease (4 links)
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Disease Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details · click a node to select it and show its pairs below (double-click or Ctrl/⌘-click opens the disease page) · drag a node to pin it in place · scroll/pinch to zoom.

Member diseases (most connected first ‐ the cluster's core)

Disease ⇵ Connections in cluster ⇵ Significant partners ⇵ Curated genes ⇵
Cataract-neurodevelopmental syndrome 4 4 1
Fatty acyl-CoA reductase 1 deficiency 4 4 1
Fatty acyl-CoA reductase 1 upregulation 4 4 1
Peroxisomal fatty acyl-coa reductase 1 disorder 4 4 1
Severe intellectual disability, epilepsy, and cataracts 4 4 1

Top shared genes (genes linked to 2+ member diseases)

Gene ⇵ Member diseases ⇵ Linked diseases
FAR1 5 / 5 Cataract-neurodevelopmental syndrome, Fatty acyl-CoA reductase 1 deficiency, Fatty acyl-CoA reductase 1 upregulation, Peroxisomal fatty acyl-coa reductase 1 disorder and 1 more
What do these columns mean?
Connections in cluster
How many other members this disease has a shared-gene link to (the node size in the network above). The most-connected diseases are the cluster's core.
Significant partners
How many of those links are statistically significant (FDR q < 0.05).
Curated genes
Distinct curated genes linked to that disease in GeDiPNet.
Member diseases (Top shared genes)
How many of this cluster's diseases are linked to the gene, out of the cluster's total. Genes shared by many members are the most direct explanation of why they group together.
Overlap genes (x / y)
x = genes shared between this cluster and the pathway/GO term; y = that pathway/GO term's total gene count. A higher x relative to y (and to the cluster's own size) means a tighter biological match.
Cluster gene count
Total distinct genes across every disease in this cluster -- the "n" used in the significance test below.
Fold enrichment
Observed overlap divided by the overlap expected by chance, given the cluster's gene count, the pathway/term's size and the gene universe tested. 5× means five times more shared genes than random. Tells strong hits apart when q-values are all vanishingly small.
P-value / FDR q-value
Is this pathway/GO term's overlap with the cluster more than chance? Upper-tail hypergeometric test, Benjamini-Hochberg corrected across every tested pathway/term (prefer the q-value -- it accounts for testing many at once).
Shared genes (Pairs within this cluster)
Number of curated genes the two diseases in that row have in common.
Similarity score (Pairs within this cluster)
Jaccard-based gene overlap between the two specific diseases in that row -- same metric as the main Shared-Gene Disease Pairs page.

Enriched Pathways (why this cluster is grouped, biologically)

Pathway ⇵ Source ⇵ Overlap genes ⇵ Fold enrichment ⇵ P-value ⇵ FDR q-value ⇵
Wax biosynthesis
FAR1
 Reactome 1 / 4 3,003× 3.33e-4 4.88e-3 ✓ sig.
Peroxisome
FAR1
 KEGG 1 / 83 145× 6.91e-3 4.52e-2 ✓ sig.

Enriched GO Terms (Biological Process, a second line of biological evidence)

GO term ⇵ GO ID ⇵ Overlap genes ⇵ Fold enrichment ⇵ P-value ⇵ FDR q-value ⇵
fatty acid derivative metabolic process
FAR1
 GO:1901568 1 / 1 18,687× 5.35e-5 1.94e-3 ✓ sig.
wax biosynthetic process
FAR1
 GO:0010025 1 / 4 4,672× 2.14e-4 5.31e-3 ✓ sig.
long-chain fatty-acyl-CoA metabolic process
FAR1
 GO:0035336 1 / 7 2,670× 3.75e-4 7.81e-3 ✓ sig.
glycerophospholipid biosynthetic process
FAR1
 GO:0046474 1 / 7 2,670× 3.75e-4 7.81e-3 ✓ sig.
ether lipid biosynthetic process
FAR1
 GO:0008611 1 / 8 2,336× 4.28e-4 8.53e-3 ✓ sig.
lipid biosynthetic process
FAR1
 GO:0008610 1 / 33 566× 1.77e-3 1.99e-2 ✓ sig.
lipid metabolic process
FAR1
 GO:0006629 1 / 840 22.2× 4.50e-2 1.01e-1

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Cataract-neurodevelopmental syndrome Peroxisomal fatty acyl-coa reductase 1 disorder 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Cataract-neurodevelopmental syndrome Fatty acyl-CoA reductase 1 upregulation 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Cataract-neurodevelopmental syndrome Fatty acyl-CoA reductase 1 deficiency 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Cataract-neurodevelopmental syndrome Severe intellectual disability, epilepsy, and cataracts 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fatty acyl-CoA reductase 1 deficiency Peroxisomal fatty acyl-coa reductase 1 disorder 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fatty acyl-CoA reductase 1 deficiency Fatty acyl-CoA reductase 1 upregulation 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fatty acyl-CoA reductase 1 deficiency Severe intellectual disability, epilepsy, and cataracts 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fatty acyl-CoA reductase 1 upregulation Peroxisomal fatty acyl-coa reductase 1 disorder 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fatty acyl-CoA reductase 1 upregulation Severe intellectual disability, epilepsy, and cataracts 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Peroxisomal fatty acyl-coa reductase 1 disorder Severe intellectual disability, epilepsy, and cataracts 0.500 1 6.46e-5 1.98e-4 ✓ sig.